Utilizing RNA-Seq data for de novo coexpression network inference.

ABSTRACT:

Motivation

RNA-Seq experiments have shown great potential for transcriptome profiling. While sequencing increases the level of biological detail, integrative data analysis is also important. One avenue is the construction of coexpression networks. Because the capacity of RNA-Seq data for network construction has not been previously evaluated, we constructed a coexpression network using striatal samples, derived its network properties and compared it with microarray-based networks.

Results

The RNA-Seq coexpression network displayed scale-free, hierarchical network structure. We detected transcripts groups (modules) with correlated profiles; modules overlap distinct ontology categories. Neuroanatomical data from the Allen Brain Atlas reveal several modules with spatial colocal

SUBMITTER: Iancu OD 

PROVIDER: S-EPMC3493127 | biostudies-literature | 2012 Jun

REPOSITORIES: biostudies-literature